位于东京湾岸的「东京水上警察署」，是警视厅为了打击日益增加的水上犯罪而特别成立的单位。不同于陆地上因监视器普及而提高的举报率，水域警备依旧薄弱，也因此成了犯罪的漏洞。聚集在这里的成员，各自的背景、经历与价值观都大不相同，可说是一盘散沙。性格各异的他们，看似难以合作，却必须共同面对东京海域与河川接连发生的案件。在一次次办案的过程中，他们逐渐磨合，最终凝聚成真正的团队

The third season began on March 14, 2009 with the three-part premiere, Transwarped, and ended on May 23, 2009. This season following the events of Transwarped focused on the Autobots' attempt to reach Cybertron in order to warn the Autobot High Council of Shockwave, who has been masquerading as Autobot Intelligence Officer Longarm Prime. Meanwhile, Megatron, Starscream, Shockwave (who replaces Blitzwing as a main character), and Lugnut plan to use the colossal Autobot Omega Supreme for constructing clones of him (dubbed as Lugnut Supremes, as they appear similar to Lugnut).

The third season began on March 14, 2009 with the three-part premiere, Transwarped, and ended on May 23, 2009. This season following the events of Transwarped focused on the Autobots' attempt to reach Cybertron in order to warn the Autobot High Council of Shockwave, who has been masquerading as Autobot Intelligence Officer Longarm Prime. Meanwhile, Megatron, Starscream, Shockwave (who replaces Blitzwing as a main character), and Lugnut plan to use the colossal Autobot Omega Supreme for constructing clones of him (dubbed as Lugnut Supremes, as they appear similar to Lugnut).